Table 1.
Characteristics of some annotation platforms
| Method | Reference | Organisms | Graphic interface | Automatic processing of data | Manual annotation | Collaborative annotation | ‘Reasoning’ capabilities | Annotation assessment | Availability |
|---|---|---|---|---|---|---|---|---|---|
| MAGPIE | (40) | Prokaryote | No | Yes | Limited | No | Yes | No | Code available |
| GENOTATOR | (41) | Eukaryote | Yes | Yes | possible | No | No | No | Code available |
| GAIA | (42) | Eukaryote | Yes | Yes | Limited | No | No | No | Web use |
| IMAGENE | (43) | Prokaryote | Yes | Possible | Yes | No | No | No | Availableb |
| GENEQUIZ | (44) | Botha | No | Yes | No | No | Yes | Yes | Web use |
| ARTEMIS | (24) | Both | Yes | No | Yes | No | No | No | GPLc |
| M-AGENTS | (45) | Virus | No | Yes | No | No | No | No | Web use |
| PEDANT | (46) | Both | Yes | Yes | Possible | No | No | No | Web use |
| ENSEMBL | (47) | Both | Nod | Yes | Noe | Yes | No | No | GPL |
| APOLLO | (48) | Both | Yes | No | Limited | Yes | No | No | GPL |
| OTTER | (49) | Both | Yes | No | Yes | Yes | No | No | Code available |
| RICEGAAS | (50) | Eukaryote | Yes | Yes | Limited | No | No | No | Web use |
| GENQUIRE | (51) | Both | Yes | No | Yes | No | No | No | GPL |
| ATUGC | (52) | Prokaryote | No | Yes | No | No | Yes | No | No |
| GENDB | (53) | Prokaryote | Yes | Yes | Yes | No | Yes | No | GPL |
| ASAP | (54) | Both | Yes | No | Yes | Yes | No | No | Web use |
| SABIA | (55) | Prokaryote | No | Yes | No | No | No | No | Code available |
| MANATEE | (see notef) | Both, virus | Yes | Yes | Yes | No | No | No | GPL |
| MAGE | (56) | Prokaryote | Yes | Yes | Yes | Yes | No | No | Web use |
| AGMIAL | Prokaryotes | Yes | Yes | Yes | Yes | No | No | GPL |
See the text for a detailed definition of the column headings.
aGeneQuiz carries out protein sequence analysis only. It has been mostly used to re-annotate prokaryotic genome.
bRequires ILOG licensed libraries.
cGNU public license.
dProvided by APOLLO.
ePerformed with OTTER.